data_4XST # _model_server_result.job_id R6B3Gm650jUZzCLngVHDaw _model_server_result.datetime_utc '2025-08-31 15:19:42' _model_server_result.server_version 0.9.12 _model_server_result.query_name ligand _model_server_result.source_id pdb-bcif _model_server_result.entry_id 4xst # _model_server_params.name atom_site _model_server_params.value '{"label_asym_id":"D","auth_seq_id":401}' # _entry.id 4XST # _exptl.entry_id 4XST _exptl.method 'X-RAY DIFFRACTION' # _entity.details ? _entity.formula_weight 221.208 _entity.id 4 _entity.src_method syn _entity.type non-polymer _entity.pdbx_description 2-acetamido-2-deoxy-beta-D-glucopyranose _entity.pdbx_number_of_molecules 3 _entity.pdbx_parent_entity_id . _entity.pdbx_mutation ? _entity.pdbx_fragment ? _entity.pdbx_ec ? # _cell.angle_alpha 90 _cell.angle_beta 90 _cell.angle_gamma 120 _cell.entry_id 4XST _cell.length_a 158.718 _cell.length_b 158.718 _cell.length_c 85.912 _cell.Z_PDB 12 _cell.pdbx_unique_axis ? # _symmetry.entry_id 4XST _symmetry.cell_setting ? _symmetry.Int_Tables_number 182 _symmetry.space_group_name_Hall . _symmetry.space_group_name_H-M 'P 63 2 2' # loop_ _pdbx_struct_assembly.method_details _pdbx_struct_assembly.oligomeric_details _pdbx_struct_assembly.oligomeric_count _pdbx_struct_assembly.details _pdbx_struct_assembly.id PISA dimeric 2 author_and_software_defined_assembly 1 PISA dodecameric 12 software_defined_assembly 2 # loop_ _pdbx_struct_assembly_gen.asym_id_list _pdbx_struct_assembly_gen.assembly_id _pdbx_struct_assembly_gen.oper_expression A,B,C,D,E,F,G,H 1 1 A,B,C,D,E,F,G,H 2 1,2,3,4,5,6 # loop_ _pdbx_struct_oper_list.id _pdbx_struct_oper_list.type _pdbx_struct_oper_list.name _pdbx_struct_oper_list.symmetry_operation _pdbx_struct_oper_list.matrix[1][1] _pdbx_struct_oper_list.matrix[1][2] _pdbx_struct_oper_list.matrix[1][3] _pdbx_struct_oper_list.matrix[2][1] _pdbx_struct_oper_list.matrix[2][2] _pdbx_struct_oper_list.matrix[2][3] _pdbx_struct_oper_list.matrix[3][1] _pdbx_struct_oper_list.matrix[3][2] _pdbx_struct_oper_list.matrix[3][3] _pdbx_struct_oper_list.vector[1] _pdbx_struct_oper_list.vector[2] _pdbx_struct_oper_list.vector[3] 1 'identity operation' 1_555 x,y,z 1 0 0 0 1 0 0 0 1 0 0 0 2 'crystal symmetry operation' 2_655 -y+1,x-y,z -0.5 -0.866025 0 0.866025 -0.5 0 0 0 1 158.718 0 0 3 'crystal symmetry operation' 3_665 -x+y+1,-x+1,z -0.5 0.866025 0 -0.866025 -0.5 0 0 0 1 79.359 137.45382 0 4 'crystal symmetry operation' 10_664 -y+1,-x+1,-z-1/2 0.5 -0.866025 0 -0.866025 -0.5 0 0 0 -1 79.359 137.45382 -42.956 5 'crystal symmetry operation' 11_654 -x+y+1,y,-z-1/2 -1 0 0 0 1 0 0 0 -1 158.718 0 -42.956 6 'crystal symmetry operation' 12_554 x,x-y,-z-1/2 0.5 0.866025 0 0.866025 -0.5 0 0 0 -1 0 0 -42.956 # loop_ _struct_asym.details _struct_asym.entity_id _struct_asym.id _struct_asym.pdbx_modified _struct_asym.pdbx_blank_PDB_chainid_flag ? 4 D N N ? 4 E N N ? 4 F N N # _pdbx_entity_branch.entity_id 3 _pdbx_entity_branch.type oligosaccharide # _pdbx_entity_branch_link.link_id 1 _pdbx_entity_branch_link.details ? _pdbx_entity_branch_link.entity_id 3 _pdbx_entity_branch_link.entity_branch_list_num_1 2 _pdbx_entity_branch_link.entity_branch_list_num_2 1 _pdbx_entity_branch_link.comp_id_1 FUC _pdbx_entity_branch_link.comp_id_2 NAG _pdbx_entity_branch_link.atom_id_1 C1 _pdbx_entity_branch_link.leaving_atom_id_1 O1 _pdbx_entity_branch_link.atom_stereo_config_1 . _pdbx_entity_branch_link.atom_id_2 O6 _pdbx_entity_branch_link.leaving_atom_id_2 HO6 _pdbx_entity_branch_link.atom_stereo_config_2 . _pdbx_entity_branch_link.value_order sing # loop_ _pdbx_branch_scheme.entity_id _pdbx_branch_scheme.hetero _pdbx_branch_scheme.asym_id _pdbx_branch_scheme.mon_id _pdbx_branch_scheme.num _pdbx_branch_scheme.pdb_asym_id _pdbx_branch_scheme.pdb_seq_num _pdbx_branch_scheme.pdb_mon_id _pdbx_branch_scheme.auth_asym_id _pdbx_branch_scheme.auth_seq_num _pdbx_branch_scheme.auth_mon_id 3 n C NAG 1 A 1 NAG E 551 NAG 3 n C FUC 2 A 2 FUC E 552 FUC # loop_ _struct_conn.conn_type_id _struct_conn.details _struct_conn.id _struct_conn.ptnr1_label_asym_id _struct_conn.ptnr1_label_atom_id _struct_conn.ptnr1_label_comp_id _struct_conn.ptnr1_label_seq_id _struct_conn.ptnr1_auth_asym_id _struct_conn.ptnr1_auth_comp_id _struct_conn.ptnr1_auth_seq_id _struct_conn.ptnr1_symmetry _struct_conn.ptnr2_label_asym_id _struct_conn.ptnr2_label_atom_id _struct_conn.ptnr2_label_comp_id _struct_conn.ptnr2_label_seq_id _struct_conn.ptnr2_auth_asym_id _struct_conn.ptnr2_auth_comp_id _struct_conn.ptnr2_auth_seq_id _struct_conn.ptnr2_symmetry _struct_conn.pdbx_ptnr1_PDB_ins_code _struct_conn.pdbx_ptnr1_label_alt_id _struct_conn.pdbx_ptnr1_standard_comp_id _struct_conn.pdbx_ptnr2_PDB_ins_code _struct_conn.pdbx_ptnr2_label_alt_id _struct_conn.pdbx_ptnr3_PDB_ins_code _struct_conn.pdbx_ptnr3_label_alt_id _struct_conn.pdbx_ptnr3_label_asym_id _struct_conn.pdbx_ptnr3_label_atom_id _struct_conn.pdbx_ptnr3_label_comp_id _struct_conn.pdbx_ptnr3_label_seq_id _struct_conn.pdbx_PDB_id _struct_conn.pdbx_dist_value _struct_conn.pdbx_value_order disulf ? disulf1 A SG CYS 8 E CYS 8 1_555 A SG CYS 26 E CYS 26 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.027 ? disulf ? disulf2 A SG CYS 126 E CYS 126 1_555 A SG CYS 155 E CYS 155 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.011 ? disulf ? disulf3 A SG CYS 159 E CYS 159 1_555 A SG CYS 182 E CYS 182 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.052 ? disulf ? disulf4 A SG CYS 169 E CYS 169 1_555 A SG CYS 188 E CYS 188 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.065 ? disulf ? disulf5 A SG CYS 192 E CYS 192 1_555 A SG CYS 201 E CYS 201 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.062 ? disulf ? disulf6 A SG CYS 196 E CYS 196 1_555 A SG CYS 207 E CYS 207 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.046 ? disulf ? disulf7 A SG CYS 208 E CYS 208 1_555 A SG CYS 216 E CYS 216 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.034 ? disulf ? disulf8 A SG CYS 212 E CYS 212 1_555 A SG CYS 225 E CYS 225 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.029 ? disulf ? disulf9 A SG CYS 228 E CYS 228 1_555 A SG CYS 237 E CYS 237 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.039 ? disulf ? disulf10 A SG CYS 241 E CYS 241 1_555 A SG CYS 253 E CYS 253 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? disulf ? disulf11 A SG CYS 259 E CYS 259 1_555 A SG CYS 284 E CYS 284 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.048 ? disulf ? disulf12 A SG CYS 288 E CYS 288 1_555 A SG CYS 301 E CYS 301 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.064 ? disulf ? disulf13 A SG CYS 304 E CYS 304 1_555 A SG CYS 308 E CYS 308 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.043 ? covale ? covale1 A ND2 ASN 25 E ASN 25 1_555 D C1 NAG . E NAG 401 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale2 A ND2 ASN 111 E ASN 111 1_555 F C1 NAG . E NAG 403 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.435 ? covale ? covale3 A ND2 ASN 215 E ASN 215 1_555 E C1 NAG . E NAG 402 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.432 ? covale ? covale4 A ND2 ASN 255 E ASN 255 1_555 C C1 NAG . A NAG 1 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.434 ? covale ? covale5 C O6 NAG . A NAG 1 1_555 C C1 FUC . A FUC 2 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 1.413 ? # _chem_comp.formula 'C8 H15 N O6' _chem_comp.formula_weight 221.208 _chem_comp.id NAG _chem_comp.mon_nstd_flag . _chem_comp.name 2-acetamido-2-deoxy-beta-D-glucopyranose _chem_comp.type 'd-saccharide, beta linking' _chem_comp.pdbx_synonyms N-acetyl-beta-D-glucosamine;2-acetamido-2-deoxy-beta-D-glucose;2-acetamido-2-deoxy-D-glucose;2-acetamido-2-deoxy-glucose;N-ACETYL-D-GLUCOSAMINE # loop_ _chem_comp_bond.atom_id_1 _chem_comp_bond.atom_id_2 _chem_comp_bond.comp_id _chem_comp_bond.value_order _chem_comp_bond.pdbx_ordinal _chem_comp_bond.pdbx_stereo_config _chem_comp_bond.pdbx_aromatic_flag C1 C2 NAG sing 258 n n C1 O1 NAG sing 259 n n C1 O5 NAG sing 260 n n C1 H1 NAG sing 261 n n C2 C3 NAG sing 262 n n C2 N2 NAG sing 263 n n C2 H2 NAG sing 264 n n C3 C4 NAG sing 265 n n C3 O3 NAG sing 266 n n C3 H3 NAG sing 267 n n C4 C5 NAG sing 268 n n C4 O4 NAG sing 269 n n C4 H4 NAG sing 270 n n C5 C6 NAG sing 271 n n C5 O5 NAG sing 272 n n C5 H5 NAG sing 273 n n C6 O6 NAG sing 274 n n C6 H61 NAG sing 275 n n C6 H62 NAG sing 276 n n C7 C8 NAG sing 277 n n C7 N2 NAG sing 278 n n C7 O7 NAG doub 279 n n C8 H81 NAG sing 280 n n C8 H82 NAG sing 281 n n C8 H83 NAG sing 282 n n N2 HN2 NAG sing 283 n n O1 HO1 NAG sing 284 n n O3 HO3 NAG sing 285 n n O4 HO4 NAG sing 286 n n O6 HO6 NAG sing 287 n n # loop_ _pdbx_chem_comp_identifier.comp_id _pdbx_chem_comp_identifier.identifier _pdbx_chem_comp_identifier.type _pdbx_chem_comp_identifier.program _pdbx_chem_comp_identifier.program_version NAG DGlcpNAcb 'CONDENSED IUPAC CARBOHYDRATE SYMBOL' GMML 1 NAG N-acetyl-b-D-glucopyranosamine 'COMMON NAME' GMML 1 NAG b-D-GlcpNAc 'IUPAC CARBOHYDRATE SYMBOL' PDB-CARE 1 NAG GlcNAc 'SNFG CARBOHYDRATE SYMBOL' GMML 1 # _atom_sites.entry_id 4XST _atom_sites.fract_transf_matrix[1][1] 0.0063 _atom_sites.fract_transf_matrix[1][2] 0.003638 _atom_sites.fract_transf_matrix[1][3] 0 _atom_sites.fract_transf_matrix[2][1] 0 _atom_sites.fract_transf_matrix[2][2] 0.007275 _atom_sites.fract_transf_matrix[2][3] 0 _atom_sites.fract_transf_matrix[3][1] 0 _atom_sites.fract_transf_matrix[3][2] 0 _atom_sites.fract_transf_matrix[3][3] 0.01164 _atom_sites.fract_transf_vector[1] 0 _atom_sites.fract_transf_vector[2] 0 _atom_sites.fract_transf_vector[3] 0 # loop_ _pdbx_nonpoly_scheme.asym_id _pdbx_nonpoly_scheme.entity_id _pdbx_nonpoly_scheme.mon_id _pdbx_nonpoly_scheme.pdb_strand_id _pdbx_nonpoly_scheme.ndb_seq_num _pdbx_nonpoly_scheme.pdb_seq_num _pdbx_nonpoly_scheme.auth_seq_num _pdbx_nonpoly_scheme.pdb_mon_id _pdbx_nonpoly_scheme.auth_mon_id _pdbx_nonpoly_scheme.pdb_ins_code D 4 NAG E 1 401 511 NAG NAG . E 4 NAG E 1 402 541 NAG NAG . F 4 NAG E 1 403 531 NAG NAG . G 5 SO4 E 1 406 595 SO4 SO4 . H 5 SO4 E 1 407 601 SO4 SO4 . # loop_ _atom_site.group_PDB _atom_site.id _atom_site.type_symbol _atom_site.label_atom_id _atom_site.label_comp_id _atom_site.label_seq_id _atom_site.label_alt_id _atom_site.pdbx_PDB_ins_code _atom_site.label_asym_id _atom_site.label_entity_id _atom_site.Cartn_x _atom_site.Cartn_y _atom_site.Cartn_z _atom_site.occupancy _atom_site.B_iso_or_equiv _atom_site.pdbx_formal_charge _atom_site.auth_atom_id _atom_site.auth_comp_id _atom_site.auth_seq_id _atom_site.auth_asym_id _atom_site.pdbx_PDB_model_num HETATM 1 C C1 NAG . . . D 4 45.796 28.91 12.214 1 190.77 ? C1 NAG 401 E 1 HETATM 2 C C2 NAG . . . D 4 44.618 27.941 12.068 1 193.62 ? C2 NAG 401 E 1 HETATM 3 C C3 NAG . . . D 4 43.978 27.74 13.447 1 196.38 ? C3 NAG 401 E 1 HETATM 4 C C4 NAG . . . D 4 45.014 27.348 14.502 1 197.4 ? C4 NAG 401 E 1 HETATM 5 C C5 NAG . . . D 4 46.15 28.371 14.539 1 196.09 ? C5 NAG 401 E 1 HETATM 6 C C6 NAG . . . D 4 47.276 28.017 15.491 1 196.8 ? C6 NAG 401 E 1 HETATM 7 C C7 NAG . . . D 4 43.716 28.364 9.777 1 190.21 ? C7 NAG 401 E 1 HETATM 8 C C8 NAG . . . D 4 42.538 28.89 9.011 1 188.94 ? C8 NAG 401 E 1 HETATM 9 N N2 NAG . . . D 4 43.631 28.456 11.125 1 193.01 ? N2 NAG 401 E 1 HETATM 10 O O3 NAG . . . D 4 42.967 26.742 13.375 1 197.61 ? O3 NAG 401 E 1 HETATM 11 O O4 NAG . . . D 4 44.383 27.278 15.779 1 199.58 ? O4 NAG 401 E 1 HETATM 12 O O5 NAG . . . D 4 46.728 28.503 13.227 1 193.19 ? O5 NAG 401 E 1 HETATM 13 O O6 NAG . . . D 4 48.159 27.034 14.96 1 194.93 ? O6 NAG 401 E 1 HETATM 14 O O7 NAG . . . D 4 44.697 27.892 9.209 1 188.84 ? O7 NAG 401 E 1 # _model_server_stats.io_time_ms 15 _model_server_stats.parse_time_ms 10 _model_server_stats.create_model_time_ms 3 _model_server_stats.query_time_ms 382 _model_server_stats.encode_time_ms 3 _model_server_stats.element_count 14 #